README.core.md
pyproject.toml
ugbio_core/__init__.py
ugbio_core/array_utils.py
ugbio_core/bed_utils.py
ugbio_core/collect_existing_metrics.py
ugbio_core/consts.py
ugbio_core/convert_h5_to_json.py
ugbio_core/coverage_analysis_utils.py
ugbio_core/dna_sequence_utils.py
ugbio_core/exec_utils.py
ugbio_core/h5_utils.py
ugbio_core/intersect_bed_regions.py
ugbio_core/logger.py
ugbio_core/math_utils.py
ugbio_core/misc_utils.py
ugbio_core/picard_metrics_utils.py
ugbio_core/pileup_utils.py
ugbio_core/plotting_utils.py
ugbio_core/sorter_stats_to_mean_coverage.py
ugbio_core/sorter_to_h5.py
ugbio_core/sorter_utils.py
ugbio_core/stats_utils.py
ugbio_core/test_utils.py
ugbio_core/trimmer_utils.py
ugbio_core/vcf_utils.py
ugbio_core.egg-info/PKG-INFO
ugbio_core.egg-info/SOURCES.txt
ugbio_core.egg-info/dependency_links.txt
ugbio_core.egg-info/entry_points.txt
ugbio_core.egg-info/requires.txt
ugbio_core.egg-info/top_level.txt
ugbio_core/concordance/__init__.py
ugbio_core/concordance/concordance_utils.py
ugbio_core/concordance/flow_based_concordance.py
ugbio_core/dna/__init__.py
ugbio_core/dna/strand_direction.py
ugbio_core/flow_format/__init__.py
ugbio_core/flow_format/error_model.py
ugbio_core/flow_format/flow_based_pileup.py
ugbio_core/flow_format/flow_based_read.py
ugbio_core/flow_format/read_expander.py
ugbio_core/flow_format/simulator.py
ugbio_core/reports/__init__.py
ugbio_core/reports/report_utils.py
ugbio_core/reports/single_sample_qc_create_html_report.ipynb
ugbio_core/reports/sorter_output_to_aggregated_metrics_h5.csv
ugbio_core/reports/top_metrics_for_tbl.csv
ugbio_core/vcfbed/__init__.py
ugbio_core/vcfbed/annotate_contig.py
ugbio_core/vcfbed/bed_writer.py
ugbio_core/vcfbed/buffered_variant_reader.py
ugbio_core/vcfbed/genotype.py
ugbio_core/vcfbed/interval_file.py
ugbio_core/vcfbed/pysam_utils.py
ugbio_core/vcfbed/variant_annotation.py
ugbio_core/vcfbed/vcftools.py